gnu: freesasa: Fix memerr tests. * gnu/packages/chemistry.scm (freesasa)[arguments]: Add "CFLAGS=-fno-builtin-malloc" to #:configure-flags. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: avalon-toolkit: Update to 2.0.5a. The bug freeing static memory and the makefile have been improved upstream, so we don't have to work around them anymore. Now, two static libraries are built instead. * gnu/packages/chemistry.scm (avalon-toolkit): Update to 2.0.5a. [source]: Switch to git reference from GitHub. Adjust snippet. Add patch from the RDKit fork. [arguments]: Remove 'dont-free-static-memory phase. Use provided makefile. Adjust 'install phase. * gnu/packages/patches/avalon-toolkit-rdkit-fixes.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: yaehmop: Update to 2023.03.1. * gnu/packages/chemistry.scm (yaehmop): Update to 2023.03.1. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: coordgenlibs: Update to 3.0.2. * gnu/packages/chemistry.scm (coordgenlibs): Update to 3.0.2. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: maeparser: Update to 1.3.1. * gnu/packages/chemistry.scm (maeparser): Update to 1.3.1. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: gemmi: Update to 0.6.4. * gnu/packages/chemistry.scm (gemmi): Update to 0.6.4. [arguments]: Adjust include/gemmi/sprintf.hpp -> src/sprintf.cpp. (freesasa)[arguments]: Link to gemmi_cpp explicitly. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: fast-float: Update to 6.0.0. * gnu/packages/cpp.scm (fast-float): Update to 6.0.0. [arguments]: Adjust path to test files. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: tinydir: Update to 1.2.6. * gnu/packages/c.scm (tinydir): Update to 1.2.6. * gnu/packages/patches/tinydir-fix-cbehave-test.patch: Adjust patch. Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: opencv: Update to 4.8.1. * gnu/packages/image-processing.scm (opencv): Update to 4.8.1. Change-Id: Ia493896c063b32c5b42cdfee5e8e921dc957ff71 Signed-off-by: Christopher Baines <mail@cbaines.net>
gnu: disarchive: Update to 0.6.0. * gnu/packages/backup.scm (disarchive): Update to 0.6.0; add 'guile-bzip2' as an input. * gnu/packages/package-management.scm (guix): Add 'guile-bzip2' as an input to enable bzip2 support when using Disarchive. * guix/self.scm (%packages): Add 'guile-bzip2'. (compiled-guix): Include 'guile-bzip2' as a dependency when building the 'guix' command. * etc/disarchive-manifest.scm (tarball-origin?): Include bzip2 tarballs. Co-authored-by: Ludovic Courtès <ludovic.courtes@inria.fr> Change-Id: I4da479054f6bef225f5ea979c091152f8a9e51d5
gnu: Add guile-bzip2. * gnu/packages/guile.scm (guile-bzip2): New package. Change-Id: I450395f6699d4b622c8043c17a197c799255a9bb
gnu: nebula: Use G-expressions. * gnu/packages/networking.scm (nebula) [arguments]: Use G-expressions. <#:phases>: Set version during build time. Change-Id: I0cda81f952e3543ac2a01d5d917df4944ac82950
gnu: nebula: Update to 1.8.2. * gnu/packages/networking.scm (nebula): Update to 1.8.2. [arguments]: <#:go>: Use go-1.20. [inputs]: Remove go-github-com-imdario-mergo. Add go-dario-cat-mergo. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: Ifab21622036f1d09dc61c687142f21515dd4f688
gnu: Add nebula. * gnu/packages/networking.scm (nebula): New variable. Co-authored-by: Alexey Abramov <levenson@mmer.org> Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: I3b38d3e6255efd18d88b1762db7bf5c8b6f46b1c
gnu: Add go-dario-cat-mergo. This is a new version of go-github-com-imdario-mergo. It was renamed and now used as dario.cat/mergo in tests and other places. * gnu/packages/golang.scm (go-dario-cat-mergo): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: I10cf6c962441535493889820543d29a9a9b20e98
gnu: go-github-com-stathat-go: Move to golang-xyz. * gnu/packages/syncthing.scm (go-github-com-stathat-go): Move from here ... * gnu/packages/golang-xyz.scm: ... to here. Change-Id: I804043f512b60665233fba61da3f2225042d8d65
gnu: go-github-com-rcrowley-go-metrics: Move to golang-xyz. * gnu/packages/syncthing.scm (go-github-com-rcrowley-go-metrics): Move from here ... * gnu/packages/golang-xyz.scm: ... to here. Change-Id: Id153e4b8295c1430077941c5e4ee854ef28a56fa
gnu: go-github-com-prometheus-client-model: Move to golang-xyz. * gnu/packages/syncthing.scm (go-github-com-prometheus-client-model): Move from here * gnu/packages/golang-xyz.scm: ... to here. * gnu/packages/golang.scm: Add (gnu packages golang-xyz) module. * gnu/packages/ipfs.scm: As above. * gnu/packages/networking.scm: As above. Change-Id: Ibf79be7fd49acc8fc88bf2411a4d7d89b44713d0
gnu: Add go-github-com-skip2-go-qrcode. * gnu/packages/golang-xyz.scm (go-github-com-skip2-go-qrcode): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: I3510982cdbc7b540281c0b0f074c1cb140ce249b
gnu: Add go-github-com-songgao-water. * gnu/packages/golang-xyz.scm (go-github-com-songgao-water): New variable. Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com> Change-Id: If08b2994f932b604d2d537e7d3d02e90934542fb